[Gate-users] core dump

[Jon Engle]

I think can work around the problem without too much trouble (at least, this
has worked for me) by putting a shell of lead around the outside of whatever
relevant other volumes I have used in my simulation -- then no positrons
escape the world volume and I receive no vectors with ID = 4. But this seems
like a "klugy" fix to me....

Thanks for your response.

Jonathan

On 3/2/07, yuxuan.zhang at di.mdacc.tmc.edu <yuxuan.zhang at di.mdacc.tmc.edu>
wrote:
>
>
> Hi,
>
> I think this is quite common for the GATE simulation. I always have these
> kind of problem and no
> easy way to solve it.
>
> yuxuan
>
>
>
>
> *"Jon Engle" <engle.jonathan at gmail.com>*
> Sent by: gate-users-bounces at lists.healthgrid.org
>
> 03/01/2007 09:01 PM
>
>         To:        gate-users at lists.healthgrid.org
>         cc:
>         Subject:        [Gate-users] core dump
>
>
> All,
>
> For my work, I would like to be able to simulate positrons emitted from a
> point source in air. To do so, I am enclosing the source in a 1 mm radius
> sphere of water for attenuation and annihilation. I recognize that doing so
> likely means some positrons will escape the world volume without
> annihilating.
>
> However, sometimes (not all the time), my simulations of point sources at
> different locations return a segmentation violation and a core dump. Often,
> I am able to rerun the same simulation with a different seed without
> problems. The error message is below, slightly abbreviated to reduce the
> size of my log files (if it might help to have a more detailed output, I am
> happy to change my settings and provide this):
>
> .
> .
> .
> .
> [GateTrajectoryNavigator:
> :FindAnnihilationGammasTrackID]  WARNING : positron found and photonID
> vector size: 1
> [GateTrajectoryNavigator::FindAnnihilationGammasTrackID]  WARNING :
> positron found and photonID vector size: 1
> [GateTrajectoryNavigator::FindAnnihilationGammasTrackID]  WARNING :
> positron found and photonID vector size: 1
> [GateTrajectoryNavigator::FindAnnihilationGammasTrackID]  WARNING :
> positron found and photonID vector size: 1
> [GateTrajectoryNavigator::FindAnnihilationGammasTrackID]  WARNING :
> positron found and photonID vector size: 1
> [GateTrajectoryNavigator::FindAnnihilationGammasTrackID]  WARNING :
> positron found and photonID vector size: 1
> [GateTrajectoryNavigator::FindAnnihilationGammasTrackID]  WARNING :
> positron found and photonID vector size: 1
> [GateTrajectoryNavigator::FindAnnihilationGammasTrackID]  WARNING :
> positron found and photonID vector size: 4
>
> *** Break *** segmentation violation
> Generating stack trace...
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> /usr/bin/addr2line: 'gate': No such file
> 0x0000000000570630 in GateDigitizer::Digitize() + 0x1f0 from gate
> 0x000000000057fa6e in GateOutputMgr::RecordEndOfEvent(G4Event const*) +
> 0x8e from gate
> 0x0000000000575f7f in GateEventAction::EndOfEventAction(G4Event const*) +
> 0x8f from gate
> 0x0000000000a4c30a in G4EventManager::DoProcessing(G4Event*) + 0x6da from
> gate
> 0x000000000099e7e1 in G4RunManager::DoEventLoop(int, char const*, int) +
> 0xd1 from gate
> 0x000000000099d0c1 in G4RunManager::BeamOn(int, char const*, int) + 0x91
> from gate
> 0x0000000000567edb in GateApplicationMgr::StartDAQ() + 0x11b from gate
>  0x00000000005b884b in
> GateApplicationMgrMessenger::SetNewValue(G4UIcommand*, G4String) + 0x12b
> from gate
> 0x0000000000bd3f18 in G4UIcommand::DoIt(G4String) + 0x388 from gate
> 0x0000000000bdd772 in G4UImanager::ApplyCommand(char const*) + 0x482 from
> gate
> 0x0000000000be560d in G4UIbatch::SessionStart() + 0x3fd from gate
> 0x0000000000bda705 in G4UImanager::ExecuteMacroFile(char const*) + 0x45
> from gate
> 0x00000000005a5cb0 in GateUIcontrolMessenger::LaunchMacroFile(G4String) +
> 0xb0 from gate
> 0x00000000005a5e27 in GateUIcontrolMessenger::SetNewValue(G4UIcommand*,
> G4String) + 0xd7 from gate
> 0x0000000000bd3f18 in G4UIcommand::DoIt(G4String) + 0x388 from gate
> 0x0000000000bdd772 in G4UImanager::ApplyCommand(char const*) + 0x482 from
> gate
> 0x0000000000566671 in main + 0x751 from gate
> 0x000000381d01c784 in __libc_start_main + 0xf4 from /lib64/libc.so.6
> 0x00000000005653aa in TApplicationImp::ShowMembers(TMemberInspector&,
> char*) + 0x9a from gate
> dogaterun.positrons: line 3: 29484 Aborted                 (core dumped)
> gate main.ps.positrons.x0y0.mac
>
> thanks again,
>
>
> --
> ***************************************************************************
>
> Jonathan Engle, Lab Tech
> Utah Center for Advanced Imaging Research
> 729 Arapeen Drive, Salt Lake City, UT 84108-1218
> (801) 581.8288, *englephysics.com* <http://englephysics.com/>
>
> ***************************************************************************
> _______________________________________________
> Gate-users mailing list
> Gate-users at lists.healthgrid.org
> http://lists.healthgrid.org/mailman/listinfo/gate-users
>
>
>


-- 
***************************************************************************
Jonathan Engle, Lab Tech
Utah Center for Advanced Imaging Research
729 Arapeen Drive, Salt Lake City, UT 84108-1218
(801) 581.8288, englephysics.com
***************************************************************************
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